Table I.
Potential candidate varieties for the SNP discovery projecta
| Variety | Origin | Type (VG)b | Sourcec | Agronomic Attributes |
|---|---|---|---|---|
| Co 39 | India | Indica (VG I) | IRGC 51231 | Parent in a mapping population, good yield in aerobic drought screening trials; blast susceptible, very short duration. |
| Fedearroz 50 | Colombia | Indica (VG I) | CIAT-FLAR BCF 1530 | Popular variety in several countries, stay green, quality traits, disease tolerance, progenitor of many breeding lines. |
| IR64 | The Philippines | Indica (VG I) | IRGC 66970 | Quality traits, multiple stress tolerance (diseases and insects), progenitor of many breeding and mapping populations, 40,000 chemical- and irradiation-induced mutants available, widely grown for many years. |
| Pokkali | India | Indica (VG I) | IRGC 108921 | Salt tolerance, parent of multiple mapping populations, microarray gene expression data available. |
| Sadu-cho | Korea | Indica (VG I) | IRGC 2243 | Korean landrace with long grain and indica-type endosperm. |
| Shan-Huang Zhan-2 (SHZ-2) | China | Indica (VG I) | IRTP 19808 | Disease-resistant, high-yielding variety. Demonstrated source of at least five superior defense gene alleles for durable resistance to blast. In the pedigrees of many varieties in south China. |
| Swarna | India | Indica (VG I) | IRTP 12715 | High yield potential, wide adaptability. Widely planted variety in India. |
| Dular | India | Aus/boro (VG II) | IRGC 32561 | Possible β-carotene donor. Red pericarp. |
| FR13 A | India | Aus/boro (VG II) | IRGC 6144 | Submergence tolerance, carrying the effective Sub1 allele. Red pericarp. |
| N 22 | India | Aus/boro (VG II) | IRGC 4819 | Iron, red pericarp. Heat tolerant. Considered drought tolerant. Good yield in managed drought trials. Drought-response expressed sequence tag collection. |
| Aswina | Bangladesh | Deep-water III (VG III) | IRGC 26289 | Deep-water rice. |
| Rayada | Bangladesh | Deep-water IV (VG IV) | IRGC 77210 | Deep-water rice. |
| Dom Sufid | Iran | Aromatic (VG V) | IRGC 12880 | Basmati plant type, aromatic rice. |
| Azucena | The Philippines | Trop japonica (VG VI) | IRGC 328 | Grain-iron quantitative trait loci. Quality traits. Parent of two mapping populations. Near-isogenic lines with high yield under water stress. Deep root distribution. |
| Cypress | United States | Trop japonica (VG VI) | IRTP 19532 | Good grain quality; cold tolerant. |
| IAC 165 | South America | Trop japonica (VG VI) | IRGC 82275 | Parent in mapping population, deep roots. |
| Inia Tacuari | Uruguay | Trop japonica (VG VI) | CIAT-FLAR BCF 828 | Popular early variety, good adaptation and stability, excellent grain quality. |
| Moroberekan | Guinea | Trop japonica (VG VI) | IRGC 12048 | Source of blast quantitative resistance traits and drought-tolerance factors. Multiple advanced breeding populations. Functional evidence for drought tolerance observed in mapping populations and backcross progeny. |
| Gerdeh | Iran | Temp japonica (VG VI) | IRGC 32301 | Near East origin. |
| Li-Jiang-Xin-Tuan-Hei-Gu (LTH) | China | Temp japonica (VG VI) | IRGC 59323 | High disease susceptibility, cold tolerant. |
| M 202 | United States | Temp japonica (VG VI) | U.S. Department of Agriculture; IRGC 77142 | Popular variety. |
| Patbyeo | Korea | Temp japonica (VG VI) | IRGC 55607 | Traditional Korean variety. |
a
Initial selection of 22 rice lines based on geographic representation, diversity, traits, and usage. Final list for resequencing may differ pending on suitable nominations by the community.
b
Type refers to the variety group (VG) as determined by isozyme analysis. For the japonica group, lines are designated as either tropical (trop) or temperate (temp).
c
Source designations are given as accession numbers from the IRGC, the Latin Fund for Irrigated Rice genebank at the International Center for Tropical Agriculture (CIAT-FLAR BCF), or the International Network for Genetic Evaluation of Rice (previously the International Rice Testing Program [IRTP]).